Finding Ideal K9 years ago
Selection of the number of nearest neighbors
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Step 1: Pre-Processing9 years ago
TL:DR: | ABOUT PRE-PROCESSING | Introduction: | Data: | THE PROCEDURE | The name of your file: | Getting the right markers out of your file: | From fcs file to data matrix (a general function): | Processing multiple files: | (Optional) a control condition using a split single file:
Assessing quality of CyTOF data with KNN9 years ago
CyTOF data quality | KNN for differential abundance | The case for normalization
Step 2: The Scone Workflow9 years ago
K-nearest neighbors: | Finding scone values: | For programmers: performing additional per-KNN statistics
Step 3: Post-Processing9 years ago
The post-processing function: | Subsampling your data prior to running t-SNE: